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• htseq-count not working
  htseq-count is not working. Its been showing "!" since 48hrs. Anyone having similar problem like ...
• htseq-count did not work
  htseq-count Did not work for a long time, could you please inform me when I can use this tool?
• HiSAT2 alignment to GRCm38? in Galaxy -- where to find mm10 reference annotation
  I am doing an RNA-seq experiment and I ran HiSAT2 with the mm10 reference genome. Then in order t...
• Job stuck in queue
  I have 2 Htseq-count jobs that have been in the queue for about 2 days now and was wondering if t...
• HT-seq count does not recognize "gff" annotation dataset == assign GTF and consider an alternate annotation source
  Hi all I have been using galaxy tutorial for RNA-Seq of Drosophila malanogaster. I have done bw...
• How to know the tool id name in job_conf.xml?
   Hi, I have added some tools in my jobs_conf file so they can use more than one cpu, however I pr...
• Table With Gene Count Reads
  Hi, I was wondering if there is any tool on Galaxy were I can obtain a table with how many rea...
• EdgeR duplicate row error
  HI all, I know that there have been previous posts about this error but here is my encounter with...
• de novo aseembly counting
  Hi,   I have assembled de novo reference gene and mapped it to tophat now i want to calculate t...
• Galaxy HTSeq tool give zero counts
  Hi, I tried galaxy HTseq tool on BAM file generated by HISAT2 to generated counts. I provided GT...
• Reference annotation GFT GFF3 problem with tool HISAT
  I got the following error while running htseq count: I think it is my gtf file problem. How to fi...
• Error with htseq-count
  When I run htseq-count in galaxy I keep getting errors. The line in the history will look as foll...
• HTSeq-Count on Command Line
  Dear all So basically, I have a .bam file(cut_L7_1_5.bam) and i installed HTSeq-Count onto my lo...
• htseq-count unknown error
  I am trying to use htseq-count tool for gene quantification, but I have this error: **"Fatal err...
• Htseq-count disappeared in toolshed in galaxy cloud
  Htseq-count disappeared in toolshed in galaxy cloud, april 13 2016. does anyone know how to get ...
• htseq-count returning only 0
  I'm trying to run htseq-count with Bowtie alignments to a bacterial genome. Even though almost 10...
• Header on Deseq2 result files
  I am using Deseq2 on galaxy for RNA-Seq data analysis. Earlier when I used to do differential exp...